genome.fa.s6.2.7.7.80.10.50.1000.122.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   

This is table  122  of  168  ( 20060 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35447672--35447731	30	2.0	31	83	3	77	43	1	36	18	1.60
35447945--35447981	9	4.1	9	92	0	65	29	10	13	45	1.77
35448025--35448067	18	2.3	18	92	4	68	34	18	13	32	1.90
35448025--35448067	9	4.7	9	82	2	50	34	18	13	32	1.90
35461125--35461155	13	2.4	13	94	0	53	32	0	12	54	1.38
35461250--35461491	50	4.7	50	86	3	286	27	23	28	20	1.99
35461250--35461499	100	2.4	103	86	5	353	26	23	28	21	1.99
35468537--35468732	110	1.8	107	87	3	293	33	19	16	30	1.95
35468986--35469069	2	43.5	2	72	11	59	50	2	4	42	1.36
35469195--35469226	2	16.0	2	100	0	64	50	0	0	50	1.00
35469290--35469322	17	1.9	17	88	11	50	57	0	3	39	1.14
35470607--35470643	10	3.6	10	96	3	65	2	0	40	56	1.13
35471149--35471627	44	11.0	44	71	11	261	27	22	20	30	1.98
35471150--35471625	90	5.5	86	73	9	347	27	22	20	30	1.98
35471382--35471622	134	1.8	129	80	6	286	29	22	20	28	1.98
35483455--35483650	110	1.8	107	86	3	284	33	19	16	30	1.94
35484118--35484150	17	1.9	17	88	11	50	57	0	3	39	1.14
35485415--35485452	11	3.5	11	96	3	69	5	0	39	55	1.23
35485765--35486138	88	4.3	88	87	1	536	29	23	18	29	1.98
35485833--35486058	45	5.1	45	63	10	115	28	24	17	29	1.97
35491218--35491245	2	14.0	2	100	0	56	50	0	0	50	1.00
35512939--35513018	41	2.0	41	87	5	117	18	22	36	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35515784--35515826	21	2.0	22	86	4	61	27	2	11	58	1.46
35516882--35516920	12	3.2	12	88	3	51	51	7	5	35	1.53
35535545--35535585	15	2.7	16	85	11	59	24	7	2	65	1.30
35535717--35535741	12	2.1	12	100	0	50	24	8	0	68	1.16
35539789--35539839	3	17.0	3	79	0	57	33	1	5	58	1.33
35539960--35539993	7	4.7	7	96	3	59	32	0	0	67	0.91
35541589--35541635	2	23.5	2	100	0	94	48	0	0	51	1.00
35542786--35542836	20	2.5	20	72	12	50	35	5	1	56	1.35
35543236--35543374	69	2.0	70	90	1	217	29	15	17	36	1.92
35548859--35549094	114	2.1	115	87	0	339	35	19	22	22	1.96
35549845--35549895	3	17.0	3	79	0	57	33	1	5	58	1.33
35550077--35550142	24	2.9	21	79	20	62	43	6	3	46	1.43
35550569--35550699	69	1.9	69	95	0	235	29	16	22	31	1.96
35557052--35557092	21	1.9	22	85	5	57	60	4	2	31	1.30
35558749--35558778	13	2.3	13	94	0	51	33	16	0	50	1.46
35560766--35560795	14	2.1	14	93	0	51	0	43	6	50	1.28
35562381--35562429	3	15.3	3	79	12	53	65	0	6	28	1.16
35563979--35564105	45	2.8	45	77	5	150	25	24	22	28	1.99
35564560--35564859	44	6.8	44	72	8	225	24	26	21	28	1.99
35564321--35564799	132	3.6	132	90	0	706	25	25	20	29	1.99
35564698--35564900	87	2.3	87	89	2	309	24	25	21	28	1.99
35565405--35565626	108	2.1	108	86	3	304	48	7	17	26	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35567821--35567860	2	20.0	2	100	0	80	50	0	0	50	1.00
35568053--35568087	16	2.1	17	89	5	54	37	5	2	54	1.39
35572665--35572719	3	17.3	3	81	10	65	65	0	5	29	1.15
35572615--35572719	6	14.9	7	71	22	53	63	3	4	27	1.32
35579173--35579203	14	2.1	15	94	5	55	32	0	35	32	1.58
35579488--35579517	15	2.0	15	93	0	51	23	0	33	43	1.54
35579871--35579906	17	2.1	17	89	5	54	72	2	2	22	1.11
35580413--35580629	115	1.9	118	92	2	368	43	16	12	27	1.83
35580839--35580887	22	2.3	21	83	10	64	24	48	0	26	1.51
35582146--35582203	24	2.5	24	91	2	91	24	10	6	58	1.55
35585244--35585557	43	7.3	43	91	0	511	20	18	33	27	1.96
35587737--35587779	21	2.0	22	86	4	61	58	11	2	27	1.46
35588317--35588359	2	22.5	2	90	9	72	48	0	0	51	1.00
35592611--35592649	12	3.2	12	88	3	51	64	5	10	20	1.44
35594373--35595833	44	32.9	44	68	14	402	28	21	18	30	1.97
35594662--35595269	315	1.9	315	91	0	1000	29	21	18	30	1.97
35594478--35595840	175	7.7	174	85	5	1367	29	21	18	30	1.97
35595839--35596098	87	3.0	87	86	2	342	26	24	20	28	1.99
35597225--35597271	21	2.2	21	84	0	58	27	34	10	27	1.90
35597366--35597413	20	2.6	20	87	12	68	12	10	0	77	1.00
35597366--35597414	8	5.4	9	83	13	57	12	10	0	77	0.99
35598272--35598335	23	2.9	21	86	13	85	14	1	12	71	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35598280--35598334	17	3.2	17	71	21	51	14	0	12	72	1.12
35598289--35598334	12	3.8	13	72	21	55	15	0	13	71	1.14
35598285--35598337	25	2.2	26	83	16	69	13	0	11	75	1.05
35598274--35598338	22	3.0	21	77	20	62	13	1	13	70	1.24
35598285--35598343	11	5.3	11	73	13	50	11	0	11	76	1.03
35598683--35598707	12	2.1	12	100	0	50	8	24	44	24	1.80
35602582--35602620	12	3.2	12	88	3	51	64	5	10	20	1.44
35604703--35604727	12	2.1	12	100	0	50	48	8	0	44	1.32
35605091--35605146	11	5.3	11	75	14	55	37	3	0	58	1.15
35605130--35605219	14	6.5	14	67	21	55	37	3	0	58	1.14
35605079--35605153	30	2.5	30	91	2	114	36	4	0	60	1.16
35605128--35605199	29	2.6	27	86	6	92	34	2	0	62	1.10
35605131--35605199	28	2.5	27	86	9	95	34	2	0	62	1.10
35605128--35605206	27	2.9	27	84	7	79	39	2	0	58	1.12
35607061--35607107	20	2.3	20	82	10	60	12	8	2	76	1.09
35607077--35607114	10	3.4	11	85	14	51	13	7	0	78	0.94
35607970--35608036	21	3.1	21	74	16	66	38	7	0	53	1.29
35610388--35610446	3	19.7	3	100	0	118	67	0	0	32	0.91
35611469--35611506	18	2.1	18	95	0	67	39	28	13	18	1.88
35614244--35614275	14	2.3	15	89	10	50	15	18	0	65	1.27
35625131--35625166	19	1.9	19	88	5	56	47	0	2	50	1.15
35626650--35626711	28	2.2	28	88	5	90	30	12	12	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35626672--35626711	15	2.9	13	79	13	53	27	12	12	47	1.77
35628499--35628542	21	2.1	21	95	0	79	47	13	9	29	1.74
35632568--35632627	26	2.2	27	85	8	77	41	8	1	48	1.43
35633512--35633545	16	2.1	16	100	0	68	44	11	17	26	1.83
35640694--35640762	24	2.9	24	80	8	70	50	5	5	37	1.50
35640857--35640918	3	20.7	3	96	0	115	66	0	1	32	1.02
35645931--35645974	2	22.0	2	100	0	88	50	0	0	50	1.00
35647678--35647718	16	2.5	17	80	15	50	12	17	4	65	1.42
35655180--35655249	34	2.1	34	100	0	140	40	22	10	27	1.86
35658673--35658711	20	2.0	20	89	0	60	58	5	2	33	1.33
35658674--35658719	20	2.4	19	81	3	56	60	6	2	30	1.34
35661138--35661188	26	1.9	26	84	4	66	41	9	0	49	1.36
35672068--35672100	16	2.0	17	88	5	50	36	0	6	57	1.23
35678407--35678579	85	2.0	85	100	0	346	28	19	18	33	1.96
35682853--35682898	14	3.5	13	85	11	58	17	0	2	80	0.81
35683704--35683749	3	15.3	3	100	0	92	32	0	0	67	0.91
35683934--35683978	23	2.0	23	82	8	56	20	11	6	62	1.50
35690044--35690089	24	2.0	23	86	4	65	28	4	4	63	1.33
35691266--35691294	2	14.5	2	100	0	58	51	0	0	48	1.00
35710052--35710264	89	2.4	87	75	6	214	38	10	26	23	1.88
35711134--35711173	7	5.6	7	88	5	53	22	0	30	47	1.52
35711134--35711179	14	3.2	14	78	6	56	21	0	30	47	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35711132--35711192	29	2.1	29	87	0	86	19	0	36	44	1.51
35711422--35711495	37	2.0	36	89	7	112	63	0	4	32	1.13
35712311--35712357	21	2.2	21	88	0	67	2	25	44	27	1.65
35714469--35714597	11	12.0	11	76	13	126	44	2	31	21	1.65
35714453--35714597	51	2.8	51	81	10	168	44	2	31	22	1.64
35714964--35714991	2	14.0	2	100	0	56	50	0	0	50	1.00
35717794--35717825	4	8.0	4	100	0	64	25	0	0	75	0.81
35723710--35723740	9	3.4	9	90	0	53	25	12	22	38	1.90
35728098--35728137	3	13.3	3	94	0	71	32	0	2	65	1.06
35728459--35728511	27	2.0	26	85	10	72	24	7	0	67	1.16

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168